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Published online before print November 12, 2001, 10.1101/gr.198801
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Vol. 11, Issue 12, 2075-2084, December 2001

LETTER
QTL Analysis in a Complex Autopolyploid: Genetic Control of Sugar Content in Sugarcane

Ray Ming,1,5 Sin-Chieh Liu,1 Paul H. Moore,2 James E. Irvine,3 and Andrew H. Paterson1,4,6,7

1 Plant Genome Mapping Laboratory, Department of Soil and Crop Sciences, Texas A&M University, College Station, Texas 77843, USA; 2 USDA-ARS, Pacific Basin Agricultural Research Center, Aiea, Hawaii 96701, USA; 3 Texas A&M Agricultural Research and Extension Center, Weslaco, Texas 78596, USA; 4 Center for Applied Genetic Technologies, Department of Crop and Soil Science, Department of Botany, and Department of Genetics, University of Georgia, Athens, Georgia 30602, USA

QTL mapping in autopolyploids is complicated by the possibility of segregation for three or more alleles at a locus and by a lack of preferential pairing, however the subset of polymorphic alleles that show simplex segregation ratios can be used to locate QTLs. In autopolyploid Saccharum, 36 significant associations between variation in sugar content and unlinked loci detected by 31 different probes were found in two interspecific F1 populations. Most QTL alleles showed phenotypic effects consistent with the parental phenotypes, but occasional transgressive QTLs revealed opportunities to purge unfavorable alleles from cultivars or introgress valuable alleles from exotics. Several QTLs on homologous chromosomes appeared to correspond to one another-multiple doses of favorable `alleles' at such chromosomal region(s) yielded diminishing returns-such negative epistasis may contribute to phenotypic buffering. Fewer sugar content QTLs were discovered from the highest-sugar genotype than from lower-sugar genotypes, perhaps suggesting that many favorable alleles have been fixed by prior selection, i.e. that the genes for which allelic variants (QTLs) persist in improved sugarcanes may be a biased subset of the population of genes controlling sugar content. Comparison of these data to mutations and QTLs previously mapped in maize hinted that seed and biomass crops may share a partly-overlapping basis for genetic variation in carbohydrate deposition. However, many QTLs do not correspond to known candidate genes, suggesting that other approaches will be necessary to isolate the genetic determinants of high sugar content of vegetative tissues.

Present addresses: 5Hawaii Agriculture Research Center, Aiea, HI 96701, USA; 6Department of Genetics, University of Georgia, Athens, GA 30602, USA.

7 Corresponding author.

11:2075-2084 ©2001 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/01 $5.00
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